CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 681

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORFCodonNumMutORF1abMutMutTypeRefCodonMutCodonAACountCodonCountCodonPropGenome Position
ORF1ab/nsp3681E681EE1499EsyngaAgaG16416414760-4762
ORF1ab/nsp3681E681GE1499GnonsyngAagGa1291280.9922484760-4762
ORF1ab/nsp3681E681GE1499GnonsyngAAgGT12910.007751944760-4762
ORF1ab/nsp3681E681delE1499deldelGAA---757514760-4762
ORF1ab/nsp3681E681XE1499XnonsynGaaTaa737314760-4762
ORF1ab/nsp3681E681AE1499AnonsyngAagCa272714760-4762
ORF1ab/nsp3681E681QE1499QnonsynGaaCaa202014760-4762
ORF1ab/nsp3681E681KE1499KnonsynGaaAaa191914760-4762
ORF1ab/nsp3681E681DE1499DnonsyngaAgaC11100.9090914760-4762
ORF1ab/nsp3681E681DE1499DnonsyngaAgaT1110.09090914760-4762
ORF1ab/nsp3681E681TE1499TnonsynGAAACC520.44760-4762
ORF1ab/nsp3681E681TE1499TnonsynGAAACG520.44760-4762
ORF1ab/nsp3681E681TE1499TnonsynGAaACa510.24760-4762
ORF1ab/nsp3681E681RE1499RnonsynGAaAGa320.6666674760-4762
ORF1ab/nsp3681E681del1E1499del1delGaa-aa320.6666674760-4762
ORF1ab/nsp3681E681RE1499RnonsynGAaCGa310.3333334760-4762
ORF1ab/nsp3681E681del1E1499del1delgAag-a310.3333334760-4762
ORF1ab/nsp3681E681NE1499NnonsynGaAAaC1114760-4762
ORF1ab/nsp3681E681del2E1499del2delgAAg--1114760-4762
ORF1ab/nsp3681E681LE1499LnonsynGAACTC1114760-4762
ORF1ab/nsp3681E681VE1499VnonsyngAagTa1114760-4762
ORF1ab/nsp3681E681PE1499PnonsynGAaCCa1114760-4762

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp3681E681EgaAgaG164164All0.000031
ORF1ab/nsp3681E681GgAagGa128129All0.000024
ORF1ab/nsp3681E681GgAAgGT1129All0
ORF1ab/nsp3681E681delGAA---7575All0.000014
ORF1ab/nsp3681E681XGaaTaa7373All0.000014
ORF1ab/nsp3681E681GgAagGa3838AY.40.000059
ORF1ab/nsp3681E681EgaAgaG3636B.1.1.4081
ORF1ab/nsp3681E681AgAagCa2727All0.000005
ORF1ab/nsp3681E681XGaaTaa2727AY.40.000042
ORF1ab/nsp3681E681EgaAgaG2727B.1.10.00049
ORF1ab/nsp3681E681GgAagGa2627B.1.10.000472
ORF1ab/nsp3681E681GgAAgGT127B.1.10.000018
ORF1ab/nsp3681E681delGAA---2222B.1.1.70.00002
ORF1ab/nsp3681E681XGaaTaa2121AY.4.50.002257
ORF1ab/nsp3681E681QGaaCaa2020All0.000004
ORF1ab/nsp3681E681KGaaAaa1919All0.000004
ORF1ab/nsp3681E681GgAagGa1414B.1.1.70.000013
ORF1ab/nsp3681E681EgaAgaG1313B.1.1.70.000012
ORF1ab/nsp3681E681GgAagGa1111AD.20.002409
ORF1ab/nsp3681E681DgaAgaC1011All0.000002
ORF1ab/nsp3681E681DgaAgaT111All0
ORF1ab/nsp3681E681EgaAgaG1010AY.250.00006
ORF1ab/nsp3681E681EgaAgaG1010B.1.617.20.000038
ORF1ab/nsp3681E681QGaaCaa88B.1.1.70.000007
ORF1ab/nsp3681E681EgaAgaG88B.1.3510.000238
ORF1ab/nsp3681E681EgaAgaG77AY.1030.000043
ORF1ab/nsp3681E681EgaAgaG66AY.1210.000812
ORF1ab/nsp3681E681delGAA---66AY.40.000009
ORF1ab/nsp3681E681QGaaCaa66B.1.5250.000679
ORF1ab/nsp3681E681EgaAgaG66C.300.010363
ORF1ab/nsp3681E681TGAAACG25All0
ORF1ab/nsp3681E681TGAAACC25All0
ORF1ab/nsp3681E681TGAaACa15All0
ORF1ab/nsp3681E681EgaAgaG55AY.40.000008
ORF1ab/nsp3681E681XGaaTaa55AY.90.000338
ORF1ab/nsp3681E681GgAagGa55B.10.000046
ORF1ab/nsp3681E681EgaAgaG55B.1.20.000044
ORF1ab/nsp3681E681TGAAACC240.111111
ORF1ab/nsp3681E681TGAAACG240.111111
ORF1ab/nsp3681E681KGaaAaa44AY.40.000006
ORF1ab/nsp3681E681EgaAgaG44AY.430.000018
ORF1ab/nsp3681E681XGaaTaa44AY.80.002424
ORF1ab/nsp3681E681AgAagCa44B.1.1.70.000004
ORF1ab/nsp3681E681GgAagGa44B.1.2210.000284
ORF1ab/nsp3681E681GgAagGa44B.1.3690.001141
ORF1ab/nsp3681E681EgaAgaG44P.10.000063
ORF1ab/nsp3681E681del1Gaa-aa23All0
ORF1ab/nsp3681E681RGAaAGa23All0
ORF1ab/nsp3681E681RGAaCGa13All0
ORF1ab/nsp3681E681del1gAag-a13All0
ORF1ab/nsp3681E681GgAagGa33AY.250.000018
ORF1ab/nsp3681E681delGAA---33AY.430.000013
ORF1ab/nsp3681E681KGaaAaa33AY.440.000018
ORF1ab/nsp3681E681AgAagCa33AY.440.000018
ORF1ab/nsp3681E681QGaaCaa33B.1.1.3690.001339
ORF1ab/nsp3681E681EgaAgaG33B.1.1.5190.000119
ORF1ab/nsp3681E681KGaaAaa33B.1.1.70.000003
ORF1ab/nsp3681E681GgAagGa33B.1.1600.000094
ORF1ab/nsp3681E681AgAagCa33B.1.258.210.023256
ORF1ab/nsp3681E681QGaaCaa220.111111
ORF1ab/nsp3681E681delGAA---220.111111
ORF1ab/nsp3681E681GgAagGa22AY.116.10.000623
ORF1ab/nsp3681E681XGaaTaa22AY.1200.000074
ORF1ab/nsp3681E681EgaAgaG22AY.230.000139
ORF1ab/nsp3681E681AgAagCa22AY.250.000012
ORF1ab/nsp3681E681DgaAgaC22AY.250.000012
ORF1ab/nsp3681E681AgAagCa22AY.30.00002
ORF1ab/nsp3681E681delGAA---22AY.4.50.000215
ORF1ab/nsp3681E681AgAagCa22AY.430.000009
ORF1ab/nsp3681E681delGAA---22AY.440.000012
ORF1ab/nsp3681E681KGaaAaa22AY.46.60.000144
ORF1ab/nsp3681E681AgAagCa22AY.580.001815
ORF1ab/nsp3681E681RGAaAGa12AY.840.000437
ORF1ab/nsp3681E681RGAaCGa12AY.840.000437
ORF1ab/nsp3681E681delGAA---22B.10.000018
ORF1ab/nsp3681E681EgaAgaG22B.10.000018
ORF1ab/nsp3681E681EgaAgaG22B.1.1.3980.006452
ORF1ab/nsp3681E681XGaaTaa22B.1.1.70.000002
ORF1ab/nsp3681E681AgAagCa22B.1.1770.000026
ORF1ab/nsp3681E681EgaAgaG22B.1.1770.000026
ORF1ab/nsp3681E681delGAA---22B.1.177.40.000422
ORF1ab/nsp3681E681GgAagGa22B.1.20.000018
ORF1ab/nsp3681E681delGAA---22B.1.360.000292
ORF1ab/nsp3681E681EgaAgaG22B.1.360.000292
ORF1ab/nsp3681E681XGaaTaa22B.1.5960.000174
ORF1ab/nsp3681E681delGAA---22B.1.6190.001742
ORF1ab/nsp3681E681GgAagGa22P.10.000032
ORF1ab/nsp3681E681delGAA---22P.10.000032
ORF1ab/nsp3681E681delGAA---11A.2.20.001689
ORF1ab/nsp3681E681NGaAAaC11All0
ORF1ab/nsp3681E681VgAagTa11All0
ORF1ab/nsp3681E681del2gAAg--11All0
ORF1ab/nsp3681E681PGAaCCa11All0
ORF1ab/nsp3681E681LGAACTC11All0
ORF1ab/nsp3681E681GgAagGa11AY.1020.000027
ORF1ab/nsp3681E681GgAagGa11AY.1030.000006
ORF1ab/nsp3681E681GgAagGa11AY.1100.000113
ORF1ab/nsp3681E681delGAA---11AY.1130.000142
ORF1ab/nsp3681E681KGaaAaa11AY.1190.000035
ORF1ab/nsp3681E681KGaaAaa11AY.160.00038
ORF1ab/nsp3681E681XGaaTaa11AY.170.008197
ORF1ab/nsp3681E681GgAagGa11AY.190.00114
ORF1ab/nsp3681E681delGAA---11AY.250.000006
ORF1ab/nsp3681E681GgAagGa11AY.30.00001
ORF1ab/nsp3681E681GgAagGa11AY.4.20.000022
ORF1ab/nsp3681E681DgaAgaC11AY.4.20.000022
ORF1ab/nsp3681E681GgAagGa11AY.4.2.10.000149
ORF1ab/nsp3681E681GgAagGa11AY.4.50.000107
ORF1ab/nsp3681E681EgaAgaG11AY.440.000006
ORF1ab/nsp3681E681RGAaAGa11AY.440.000006
ORF1ab/nsp3681E681GgAagGa11AY.440.000006
ORF1ab/nsp3681E681del1Gaa-aa11AY.440.000006
ORF1ab/nsp3681E681AgAagCa11AY.450.000122
ORF1ab/nsp3681E681EgaAgaG11AY.46.20.000635
ORF1ab/nsp3681E681EgaAgaG11AY.46.60.000072
ORF1ab/nsp3681E681DgaAgaC11AY.480.000465
ORF1ab/nsp3681E681GgAagGa11AY.530.000288
ORF1ab/nsp3681E681XGaaTaa11AY.580.000907
ORF1ab/nsp3681E681KGaaAaa11AY.620.000436
ORF1ab/nsp3681E681DgaAgaC11AY.75.10.00018
ORF1ab/nsp3681E681delGAA---11AY.810.001992
ORF1ab/nsp3681E681TGAaACa11AY.840.000437
ORF1ab/nsp3681E681PGAaCCa11AY.840.000437
ORF1ab/nsp3681E681EgaAgaG11AY.870.000833
ORF1ab/nsp3681E681XGaaTaa11AY.870.000833
ORF1ab/nsp3681E681KGaaAaa11AY.9.20.000037
ORF1ab/nsp3681E681EgaAgaG11AY.980.000079
ORF1ab/nsp3681E681delGAA---11AY.990.001049
ORF1ab/nsp3681E681AgAagCa11B.10.000009
ORF1ab/nsp3681E681KGaaAaa11B.10.000009
ORF1ab/nsp3681E681LGAACTC11B.10.000009
ORF1ab/nsp3681E681delGAA---11B.1.10.000018
ORF1ab/nsp3681E681XGaaTaa11B.1.10.000018
ORF1ab/nsp3681E681XGaaTaa11B.1.1.10.000327
ORF1ab/nsp3681E681EgaAgaG11B.1.1.100.001115
ORF1ab/nsp3681E681GgAagGa11B.1.1.1210.002427
ORF1ab/nsp3681E681delGAA---11B.1.1.1420.017544
ORF1ab/nsp3681E681EgaAgaG11B.1.1.1710.003676
ORF1ab/nsp3681E681GgAagGa11B.1.1.1740.003378
ORF1ab/nsp3681E681GgAagGa11B.1.1.2140.000055
ORF1ab/nsp3681E681DgaAgaC11B.1.1.2320.001815
ORF1ab/nsp3681E681AgAagCa11B.1.1.2880.001916
ORF1ab/nsp3681E681NGaAAaC11B.1.1.3060.000438
ORF1ab/nsp3681E681delGAA---11B.1.1.3110.000358
ORF1ab/nsp3681E681delGAA---11B.1.1.4090.002833
ORF1ab/nsp3681E681AgAagCa11B.1.1.4200.001006
ORF1ab/nsp3681E681AgAagCa11B.1.1.440.00241
ORF1ab/nsp3681E681VgAagTa11B.1.1.70.000001
ORF1ab/nsp3681E681del2gAAg--11B.1.1.70.000001
ORF1ab/nsp3681E681GgAagGa11B.1.1110.001175
ORF1ab/nsp3681E681delGAA---11B.1.1490.003425
ORF1ab/nsp3681E681delGAA---11B.1.1570.002985
ORF1ab/nsp3681E681delGAA---11B.1.160.70.002079
ORF1ab/nsp3681E681delGAA---11B.1.1770.000013
ORF1ab/nsp3681E681delGAA---11B.1.177.160.000664
ORF1ab/nsp3681E681XGaaTaa11B.1.177.310.011494
ORF1ab/nsp3681E681delGAA---11B.1.177.500.004695
ORF1ab/nsp3681E681delGAA---11B.1.177.570.000281
ORF1ab/nsp3681E681delGAA---11B.1.177.630.002703
ORF1ab/nsp3681E681KGaaAaa11B.1.177.650.000665
ORF1ab/nsp3681E681delGAA---11B.1.177.810.000189
ORF1ab/nsp3681E681EgaAgaG11B.1.177.820.000477
ORF1ab/nsp3681E681AgAagCa11B.1.20.000009
ORF1ab/nsp3681E681del1gAag-a11B.1.2060.000816
ORF1ab/nsp3681E681delGAA---11B.1.2100.002132
ORF1ab/nsp3681E681delGAA---11B.1.2430.00007
ORF1ab/nsp3681E681delGAA---11B.1.2580.000067
ORF1ab/nsp3681E681delGAA---11B.1.3190.003049
ORF1ab/nsp3681E681DgaAgaC11B.1.3670.000792
ORF1ab/nsp3681E681QGaaCaa11B.1.3690.000285
ORF1ab/nsp3681E681DgaAgaT11B.1.3960.000706
ORF1ab/nsp3681E681EgaAgaG11B.1.5650.00081
ORF1ab/nsp3681E681DgaAgaC11B.1.5750.000303
ORF1ab/nsp3681E681DgaAgaC11B.1.5970.00463
ORF1ab/nsp3681E681XGaaTaa11B.1.5990.00365
ORF1ab/nsp3681E681XGaaTaa11B.1.6120.002653
ORF1ab/nsp3681E681delGAA---11B.1.617.10.000129
ORF1ab/nsp3681E681XGaaTaa11B.1.617.20.000004
ORF1ab/nsp3681E681DgaAgaC11B.1.617.20.000004
ORF1ab/nsp3681E681AgAagCa11B.1.617.20.000004
ORF1ab/nsp3681E681del1Gaa-aa11B.1.617.20.000004
ORF1ab/nsp3681E681KGaaAaa11B.1.617.20.000004
ORF1ab/nsp3681E681delGAA---11B.1.617.20.000004
ORF1ab/nsp3681E681XGaaTaa11B.1.619.10.000641
ORF1ab/nsp3681E681delGAA---11B.1.6210.000089
ORF1ab/nsp3681E681delGAA---11B.150.017544
ORF1ab/nsp3681E681EgaAgaG11D.20.000075
ORF1ab/nsp3681E681delGAA---11P.1.10.000318
ORF1ab/nsp3681E681delGAA---11Q.80.000165

CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk

CoV-GLUE uses sequence data from GISAID. GISAID data provided via this web application is subject to GISAID's Terms and Conditions.